// This model generated automatically from SBML
// WARNING: Renamed variable _space_6_minus_Hexanolide to xxx_space_6_minus_Hexanolide due to JSim namespace restrictions
// WARNING: Renamed variable _space_6_minus_Hydroxyhexanoic_space_acid to xxx_space_6_minus_Hydroxyhexanoic_space_acid due to JSim namespace restrictions
// WARNING: Renamed variable _space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA to xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA due to JSim namespace restrictions
// WARNING: Renamed variable _space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA to xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA due to JSim namespace restrictions
// WARNING: Renamed variable _space_3_minus_Oxoadipyl_minus_CoA to xxx_space_3_minus_Oxoadipyl_minus_CoA due to JSim namespace restrictions
// WARNING: Renamed variable _space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane to xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane due to JSim namespace restrictions
// WARNING: Renamed variable _space_2_minus_Hydroxycyclohexan_minus_1_minus_one to xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one due to JSim namespace restrictions

// unit definitions
import nsrunit;
unit conversion off;

// SBML property definitions
property sbmlRole=string;
property sbmlName=string;
property sbmlCompartment=string;

// SBML reactions
// R03751: _space_6_minus_Hexanolide <=> _space_6_minus_Hydroxyhexanoic_space_acid 
// R05231: _space_6_minus_Hydroxyhexanoic_space_acid <=> Adipate_space_semialdehyde 
// R06942: _space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA <=> _space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA 
// R06944: Adipate <=> Adipyl_minus_CoA 
// R06943: Adipyl_minus_CoA <=> _space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA 
// R05100: Cyclohexan_minus_1_space_2_minus_dione => Adipate_space_semialdehyde 
// R06622: _space_2_minus_Hydroxycyclohexan_minus_1_minus_one <=> _space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane 
// R02231: Cyclohexanone => _space_6_minus_Hexanolide 
// R06940: N_minus_Cyclohexylformamide <=> Cyclohexylamine 
// R06941: _space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA <=> _space_3_minus_Oxoadipyl_minus_CoA 

math main {
  realDomain time second;
  time.min=0;
  extern time.max;
  extern time.delta;

  // variable definitions
  real default = 1 L;
  real uVol = 1 L;
  real E3_space_5_space_1_space__minus_ = 0 M;
  real E1_space_1_space_1_space_2 = 0 M;
  real E1_space_14_space_13_space_22 = 0 M;
  real E3_space_1_space_1_space_17 = 0 M;
  real E6_space_2_space_1_space__minus_ = 0 M;
  real E1_space_3_space_99_space__minus_ = 0 M;
  real E4_space_2_space_1_space_17 = 0 M;
  real E1_space_1_space_1_space_35 = 0 M;
  real E3_space_7_space_1_space__minus_ = 0 M;
  real N_minus_Cyclohexylformamide(time) M;
  real Cyclohexylamine(time) M;
  real Cyclohexanone(time) M;
  real xxx_space_6_minus_Hexanolide(time) M;
  real xxx_space_6_minus_Hydroxyhexanoic_space_acid(time) M;
  real Adipate_space_semialdehyde(time) M;
  real Adipate(time) M;
  real Adipyl_minus_CoA(time) M;
  real xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA(time) M;
  real xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA(time) M;
  real xxx_space_3_minus_Oxoadipyl_minus_CoA(time) M;
  real xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane(time) M;
  real xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one(time) M;
  real Cyclohexan_minus_1_space_2_minus_dione(time) M;
  real R03751(time) katal;
  extern real R03751.kf;
  extern real R03751.kb;
  real R05231(time) katal;
  extern real R05231.kf;
  extern real R05231.kb;
  real R06942(time) katal;
  extern real R06942.kf;
  extern real R06942.kb;
  real R06944(time) katal;
  extern real R06944.kf;
  extern real R06944.kb;
  real R06943(time) katal;
  extern real R06943.kf;
  extern real R06943.kb;
  real R05100(time) katal;
  extern real R05100.kf;
  extern real R05100.kb;
  real R06622(time) katal;
  extern real R06622.kf;
  extern real R06622.kb;
  real R02231(time) katal;
  extern real R02231.kf;
  extern real R02231.kb;
  real R06940(time) katal;
  extern real R06940.kf;
  extern real R06940.kb;
  real R06941(time) katal;
  extern real R06941.kf;
  extern real R06941.kb;

  // equations
  when (time=time.min) N_minus_Cyclohexylformamide = 0;
  (N_minus_Cyclohexylformamide*uVol):time = -1*R06940;
  when (time=time.min) Cyclohexylamine = 0;
  (Cyclohexylamine*uVol):time = R06940;
  when (time=time.min) Cyclohexanone = 0;
  (Cyclohexanone*uVol):time = -1*R02231;
  when (time=time.min) xxx_space_6_minus_Hexanolide = 0;
  (xxx_space_6_minus_Hexanolide*uVol):time = -1*R03751 + R02231;
  when (time=time.min) xxx_space_6_minus_Hydroxyhexanoic_space_acid = 0;
  (xxx_space_6_minus_Hydroxyhexanoic_space_acid*uVol):time = R03751 + -1*R05231;
  when (time=time.min) Adipate_space_semialdehyde = 0;
  (Adipate_space_semialdehyde*uVol):time = R05231 + R05100;
  when (time=time.min) Adipate = 0;
  (Adipate*uVol):time = -1*R06944;
  when (time=time.min) Adipyl_minus_CoA = 0;
  (Adipyl_minus_CoA*uVol):time = R06944 + -1*R06943;
  when (time=time.min) xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA = 0;
  (xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA*uVol):time = -1*R06942 + R06943;
  when (time=time.min) xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA = 0;
  (xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA*uVol):time = R06942 + -1*R06941;
  when (time=time.min) xxx_space_3_minus_Oxoadipyl_minus_CoA = 0;
  (xxx_space_3_minus_Oxoadipyl_minus_CoA*uVol):time = R06941;
  when (time=time.min) xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane = 0;
  (xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane*uVol):time = R06622;
  when (time=time.min) xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one = 0;
  (xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one*uVol):time = -1*R06622;
  when (time=time.min) Cyclohexan_minus_1_space_2_minus_dione = 0;
  (Cyclohexan_minus_1_space_2_minus_dione*uVol):time = -1*R05100;
  R03751 = R03751.kf*_space_6_minus_Hexanolide - R03751.kb*_space_6_minus_Hydroxyhexanoic_space_acid;
  R05231 = R05231.kf*_space_6_minus_Hydroxyhexanoic_space_acid - R05231.kb*Adipate_space_semialdehyde;
  R06942 = R06942.kf*_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA - R06942.kb*_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA;
  R06944 = R06944.kf*Adipate - R06944.kb*Adipyl_minus_CoA;
  R06943 = R06943.kf*Adipyl_minus_CoA - R06943.kb*_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA;
  R05100 = R05100.kf*Cyclohexan_minus_1_space_2_minus_dione - R05100.kb*Adipate_space_semialdehyde;
  R06622 = R06622.kf*_space_2_minus_Hydroxycyclohexan_minus_1_minus_one - R06622.kb*_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane;
  R02231 = R02231.kf*Cyclohexanone - R02231.kb*_space_6_minus_Hexanolide;
  R06940 = R06940.kf*N_minus_Cyclohexylformamide - R06940.kb*Cyclohexylamine;
  R06941 = R06941.kf*_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA - R06941.kb*_space_3_minus_Oxoadipyl_minus_CoA;

  // variable properties
  default.sbmlRole="compartment";
  uVol.sbmlRole="compartment";
  E3_space_5_space_1_space__minus_.sbmlRole="species";
  E3_space_5_space_1_space__minus_.sbmlCompartment="uVol";
  E1_space_1_space_1_space_2.sbmlRole="species";
  E1_space_1_space_1_space_2.sbmlCompartment="uVol";
  E1_space_14_space_13_space_22.sbmlRole="species";
  E1_space_14_space_13_space_22.sbmlCompartment="uVol";
  E3_space_1_space_1_space_17.sbmlRole="species";
  E3_space_1_space_1_space_17.sbmlCompartment="uVol";
  E6_space_2_space_1_space__minus_.sbmlRole="species";
  E6_space_2_space_1_space__minus_.sbmlCompartment="uVol";
  E1_space_3_space_99_space__minus_.sbmlRole="species";
  E1_space_3_space_99_space__minus_.sbmlCompartment="uVol";
  E4_space_2_space_1_space_17.sbmlRole="species";
  E4_space_2_space_1_space_17.sbmlCompartment="uVol";
  E1_space_1_space_1_space_35.sbmlRole="species";
  E1_space_1_space_1_space_35.sbmlCompartment="uVol";
  E3_space_7_space_1_space__minus_.sbmlRole="species";
  E3_space_7_space_1_space__minus_.sbmlCompartment="uVol";
  N_minus_Cyclohexylformamide.sbmlRole="species";
  N_minus_Cyclohexylformamide.sbmlCompartment="uVol";
  Cyclohexylamine.sbmlRole="species";
  Cyclohexylamine.sbmlCompartment="uVol";
  Cyclohexanone.sbmlRole="species";
  Cyclohexanone.sbmlCompartment="uVol";
  xxx_space_6_minus_Hexanolide.sbmlRole="species";
  xxx_space_6_minus_Hexanolide.sbmlName="_space_6_minus_Hexanolide";
  xxx_space_6_minus_Hexanolide.sbmlCompartment="uVol";
  xxx_space_6_minus_Hydroxyhexanoic_space_acid.sbmlRole="species";
  xxx_space_6_minus_Hydroxyhexanoic_space_acid.sbmlName="_space_6_minus_Hydroxyhexanoic_space_acid";
  xxx_space_6_minus_Hydroxyhexanoic_space_acid.sbmlCompartment="uVol";
  Adipate_space_semialdehyde.sbmlRole="species";
  Adipate_space_semialdehyde.sbmlCompartment="uVol";
  Adipate.sbmlRole="species";
  Adipate.sbmlCompartment="uVol";
  Adipyl_minus_CoA.sbmlRole="species";
  Adipyl_minus_CoA.sbmlCompartment="uVol";
  xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA.sbmlRole="species";
  xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA.sbmlName="_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA";
  xxx_space_5_minus_Carboxy_minus_2_minus_pentenoyl_minus_CoA.sbmlCompartment="uVol";
  xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA.sbmlRole="species";
  xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA.sbmlName="_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA";
  xxx_space_3S_space__minus_3_minus_Hydroxyadipyl_minus_CoA.sbmlCompartment="uVol";
  xxx_space_3_minus_Oxoadipyl_minus_CoA.sbmlRole="species";
  xxx_space_3_minus_Oxoadipyl_minus_CoA.sbmlName="_space_3_minus_Oxoadipyl_minus_CoA";
  xxx_space_3_minus_Oxoadipyl_minus_CoA.sbmlCompartment="uVol";
  xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane.sbmlRole="species";
  xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane.sbmlName="_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane";
  xxx_space_1_minus_Oxa_minus_2_minus_oxo_minus_3_minus_hydroxycycloheptane.sbmlCompartment="uVol";
  xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one.sbmlRole="species";
  xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one.sbmlName="_space_2_minus_Hydroxycyclohexan_minus_1_minus_one";
  xxx_space_2_minus_Hydroxycyclohexan_minus_1_minus_one.sbmlCompartment="uVol";
  Cyclohexan_minus_1_space_2_minus_dione.sbmlRole="species";
  Cyclohexan_minus_1_space_2_minus_dione.sbmlCompartment="uVol";
  R03751.sbmlRole="rate";
  R03751.kf.sbmlRole="rate";
  R03751.kb.sbmlRole="rate";
  R05231.sbmlRole="rate";
  R05231.kf.sbmlRole="rate";
  R05231.kb.sbmlRole="rate";
  R06942.sbmlRole="rate";
  R06942.kf.sbmlRole="rate";
  R06942.kb.sbmlRole="rate";
  R06944.sbmlRole="rate";
  R06944.kf.sbmlRole="rate";
  R06944.kb.sbmlRole="rate";
  R06943.sbmlRole="rate";
  R06943.kf.sbmlRole="rate";
  R06943.kb.sbmlRole="rate";
  R05100.sbmlRole="rate";
  R05100.kf.sbmlRole="rate";
  R05100.kb.sbmlRole="rate";
  R06622.sbmlRole="rate";
  R06622.kf.sbmlRole="rate";
  R06622.kb.sbmlRole="rate";
  R02231.sbmlRole="rate";
  R02231.kf.sbmlRole="rate";
  R02231.kb.sbmlRole="rate";
  R06940.sbmlRole="rate";
  R06940.kf.sbmlRole="rate";
  R06940.kb.sbmlRole="rate";
  R06941.sbmlRole="rate";
  R06941.kf.sbmlRole="rate";
  R06941.kb.sbmlRole="rate";
}